Abstract: The prediction of transmembrane helical segments
(TMHs) in membrane proteins is an important field in the
bioinformatics research. In this paper, a new method based on discrete
wavelet transform (DWT) has been developed to predict the number
and location of TMHs in membrane proteins. PDB coded as 1KQG
was chosen as an example to describe the prediction of the number and
location of TMHs in membrane proteins by using this method. To
access the effect of the method, 80 proteins with known 3D-structure
from Mptopo database are chosen at random as the test objects
(including 325 TMHs), 308 of which can be predicted accurately, the
average predicted accuracy is 96.3%. In addition, the above 80
membrane proteins are divided into 13 groups according to their
function and type. In particular, the results of the prediction of TMHs
of the 13 groups are satisfying.
Abstract: Gliding during night without electric power is an efficient method to enhance endurance performance of solar aircrafts. The properties of maximum gliding endurance path are studied in this paper. The problem is formulated as an optimization problem about maximum endurance can be sustained by certain potential energy storage with dynamic equations and aerodynamic parameter constrains. The optimal gliding path is generated based on gauss pseudo-spectral method. In order to analyse relationship between altitude, velocity of solar UAVs and its endurance performance, the lift coefficient in interval of [0.4, 1.2] and flight envelopes between 0~30km are investigated. Results show that broad range of lift coefficient can improve solar aircrafts- long endurance performance, and it is possible for a solar aircraft to achieve the aim of long endurance during whole night just by potential energy storage.
Abstract: The effects of commercial or bovine yeasts on the
performance and blood variables of broiler chickens intoxicated with
aflatoxin were investigated in broilers. Four hundred eighty broilers
(Arbor Acres; 3-wk-old) were randomly assigned to 4 groups. Each
group (120 broiler chickens) was further randomly divided into 6
replicates of 20 chickens. The treatments were control diet without
additives (treatment 1), 250 ppb AFB1 (treatment 2), commercial
yeast, Saccharomyces cerevisiae, (CY 2.5 x 107 CFU/g) + 250 ppb
AFB1 (treatment 3) and bovine yeast, Saccharomyces cerevisiae,
(BY 2.5 x 107 CFU/g + 250 ppb AFB1 (treatment 4). Complete
randomized design (CRD) was used in the experiment. Feed
consumption and body weight were recorded at every five-day
period. On day 42, carcass compositions were determined from 30
birds per treatment. While chicks were sacrificed, 3-4 ml blood
sample was taken and stored frozen at (-20°C) for serum chemical
analysis to determine effects of consumption of diets on blood
chemistry (total protein, albumin, glucose, urea, cholesterol and
triglycerides). There were no significant differences in ADFI among
the treatments(P>0.05). However, BWG, FCR and mortality were
highly significantly different (P
Abstract: We present a new numerical method for the computation of the steady-state solution of Markov chains. Theoretical analyses show that the proposed method, with a contraction factor α, converges to the one-dimensional null space of singular linear systems of the form Ax = 0. Numerical experiments are used to illustrate the effectiveness of the proposed method, with applications to a class of interesting models in the domain of tandem queueing networks.
Abstract: Simulation is a very powerful method used for highperformance
and high-quality design in distributed system, and now
maybe the only one, considering the heterogeneity, complexity and
cost of distributed systems. In Grid environments, foe example, it is
hard and even impossible to perform scheduler performance
evaluation in a repeatable and controllable manner as resources and
users are distributed across multiple organizations with their own
policies. In addition, Grid test-beds are limited and creating an
adequately-sized test-bed is expensive and time consuming.
Scalability, reliability and fault-tolerance become important
requirements for distributed systems in order to support distributed
computation. A distributed system with such characteristics is called
dependable. Large environments, like Cloud, offer unique
advantages, such as low cost, dependability and satisfy QoS for all
users. Resource management in large environments address
performant scheduling algorithm guided by QoS constrains. This
paper presents the performance evaluation of scheduling heuristics
guided by different optimization criteria. The algorithms for
distributed scheduling are analyzed in order to satisfy users
constrains considering in the same time independent capabilities of
resources. This analysis acts like a profiling step for algorithm
calibration. The performance evaluation is based on simulation. The
simulator is MONARC, a powerful tool for large scale distributed
systems simulation. The novelty of this paper consists in synthetic
analysis results that offer guidelines for scheduler service
configuration and sustain the empirical-based decision. The results
could be used in decisions regarding optimizations to existing Grid
DAG Scheduling and for selecting the proper algorithm for DAG
scheduling in various actual situations.
Abstract: The classification of the protein structure is commonly
not performed for the whole protein but for structural domains, i.e.,
compact functional units preserved during evolution. Hence, a first
step to a protein structure classification is the separation of the
protein into its domains. We approach the problem of protein domain
identification by proposing a novel graph theoretical algorithm. We
represent the protein structure as an undirected, unweighted and
unlabeled graph which nodes correspond the secondary structure
elements of the protein. This graph is call the protein graph. The
domains are then identified as partitions of the graph corresponding
to vertices sets obtained by the maximization of an objective function,
which mutually maximizes the cycle distributions found in the
partitions of the graph. Our algorithm does not utilize any other kind
of information besides the cycle-distribution to find the partitions. If
a partition is found, the algorithm is iteratively applied to each of
the resulting subgraphs. As stop criterion, we calculate numerically
a significance level which indicates the stability of the predicted
partition against a random rewiring of the protein graph. Hence,
our algorithm terminates automatically its iterative application. We
present results for one and two domain proteins and compare our
results with the manually assigned domains by the SCOP database
and differences are discussed.
Abstract: The high world interest given to the researches concerning the study of moderately halophilic solvent-tolerant bacteria isolated from marine polluted environments is due to their high biotechnological potential, and also to the perspective of their application in different remediation technologies. Using enrichment procedures, I isolated two moderately halophilic Gram-negative bacterial strains from seawater sample, which are tolerant to organic solvents. Cell tolerance, adhesion and cells viability of Aeromonas salmonicida IBBCt2 and Pseudomonas aeruginosa IBBCt3 in the presence of organic solvents depends not only on its physicochemical properties and its concentration, but also on the specific response of the cells, and the cellular response is not the same for these bacterial strains. n-hexane, n-heptane, propylbenzene, with log POW between 3.69 and 4.39, were less toxic for Aeromonas salmonicida IBBCt2 and Pseudomonas aeruginosa IBBCt3, compared with toluene, styrene, xylene isomers and ethylbenzene, with log POW between 2.64 and 3.17. The results indicated that Aeromonas salmonicida IBBCt2 is more susceptible to organic solvents than Pseudomonas aeruginosa IBBCt3. The mechanisms underlying solvent tolerance (e.g., the existance of the efflux pumps) in Aeromonas salmonicida IBBCt2 and Pseudomonas aeruginosa IBBCt3 it was also studied.
Abstract: Toxic and bloom-forming cyanobacterium Microcystis
aeruginosa was exposed to antialgal allelochemical gramine (0, 0.5, 1,
2, 4, 8 mg·L-1), The effects of gramine on photosynthetic pigments
(lipid soluble: chlorophyll a and β-carotene; water soluble:
phycocyanin, allophycocyanin, phycoerythrin, and total phycobilins)
and absorption spectra were studied in order to identify the most
sensitive pigment probe implicating the crucial suppression site on
photosynthetic apparatus. The results obtained indicated that all
pigment parameters were decreased with gramine concentration
increasing and exposure time extending. The above serious bleaching
of pigments was also reflected on the scanning results of absorption
spectra. Phycoerytherin exhibited the highest sensitivity to gramine
added, following by the largest relative decrease. It was concluded that
gramine seriously influenced algal photosynthetic activity by
destroying photosynthetic pigments and phycoerythrin most sensitive
to gramine might be contributed to its placing the outside of
phycobilins.
Abstract: In this paper, an automated system is presented for
identification and separation of plastic resins based on near infrared
(NIR) reflectance spectroscopy. For identification and separation
among resins, a "Two-Filter" identification method is proposed that
is capable to distinguish among polyethylene terephthalate (PET),
high density polyethylene (HDPE), polyvinyl chloride (PVC),
polypropylene (PP) and polystyrene (PS). Through surveying effects
of parameters such as surface contamination, sample thickness, label
and cap existence, it was obvious that the "Two-Filter" method has a
high efficiency in identification of resins. It is shown that accurate
identification and separation of five major resins can be obtained
through calculating the relative reflectance at two wavelengths in the
NIR region.
Abstract: A sensitive and specific method for quantitative
determination of aflatoxins(B1, B2, G1,G2), deoxynivalenol,
fumonisin(B1,B2), ochratoxin A, zearalenone, T-2 and HT-2 in
roasted and ground grains using liquid chromatography combined
with tandem mass spectrometry. A double extraction using a
phosphate buffer solution followed by methanol was applied to
achieve effective co extraction of 11 mycotoxins. A multitoxin
immunoaffinity column for all these mycotoxins was used to clean up
the extract. The LODs of mycotoxins were 0.1~6.1 μg/kg, LOQs were
0.3~18.4 μg/kg. Forty seven samples collected from Seoul (Korea) for
mycotoxin contamination monitoring. The results showed that the
occurrence of zearalenone and deoxynivalenol were frequent.
Zearalenone was detected in all samples and deoxynivalenol was
detected in 80.9 % samples in the range 0.626 ~ 29.264 μg/kg and N.D
~ 48.332 μg/kg respectively. Fumonisins and ochratoxin A were
detected in 46.8% samples and 17 % samples respectively, aflatoxins
and T-2/HT-2 toxins were not detected all samples.
Abstract: In this study, a high accuracy protein-protein interaction
prediction method is developed. The importance of the proposed
method is that it only uses sequence information of proteins while
predicting interaction. The method extracts phylogenetic profiles of
proteins by using their sequence information. Combining the phylogenetic
profiles of two proteins by checking existence of homologs
in different species and fitting this combined profile into a statistical
model, it is possible to make predictions about the interaction status
of two proteins.
For this purpose, we apply a collection of pattern recognition
techniques on the dataset of combined phylogenetic profiles of protein
pairs. Support Vector Machines, Feature Extraction using ReliefF,
Naive Bayes Classification, K-Nearest Neighborhood Classification,
Decision Trees, and Random Forest Classification are the methods
we applied for finding the classification method that best predicts
the interaction status of protein pairs. Random Forest Classification
outperformed all other methods with a prediction accuracy of 76.93%
Abstract: Most integrated inertial navigation systems (INS) and
global positioning systems (GPS) have been implemented using the
Kalman filtering technique with its drawbacks related to the need for
predefined INS error model and observability of at least four
satellites. Most recently, a method using a hybrid-adaptive network
based fuzzy inference system (ANFIS) has been proposed which is
trained during the availability of GPS signal to map the error
between the GPS and the INS. Then it will be used to predict the
error of the INS position components during GPS signal blockage.
This paper introduces a genetic optimization algorithm that is used to
update the ANFIS parameters with respect to the INS/GPS error
function used as the objective function to be minimized. The results
demonstrate the advantages of the genetically optimized ANFIS for
INS/GPS integration in comparison with conventional ANFIS
specially in the cases of satellites- outages. Coping with this problem
plays an important role in assessment of the fusion approach in land
navigation.
Abstract: In this study, three strains of Vibrio parahaemolyticus
(690, BCRC 13023 and BCRC 13025) were subjected to acid
adaptation at pH 5.5 for 90 min. The survival of acid-adapted and
non-adapted V. parahaemolyticus strains under simulated gastric
condition and their protein expression profiles were investigated.
Results showed that acid adaptation increased the survival of the test
V. parahaemolyticus strains after exposure to simulated gastric juice
(pH 3). Additionally, acid adaptation also affected the protein
expression in these V. parahaemolyticus strains. Nine proteins,
identified as atpA, atpB, DnaK, GroEL, OmpU, enolase,
fructose-bisphosphate aldolase, phosphoglycerate kinase and
triosephosphate isomerase, were induced by acid adaptation in two or
three of the test strains. These acid-adaptive proteins may play
important regulatory roles in the acid tolerance response (ATR) of V.
parahaemolyticus.
Abstract: A rare phenomenon of SDS-induced activation of a latent protease activity associated with the purified silkworm excretory red fluorescent protein (SE-RFP) was noticed. SE-RFP aliquots incubated with SDS for different time intervals indicated that the protein undergoes an obligatory breakdown into a number of subunits which exhibit autoproteolytic (acting upon themselves) and/or heteroproteolytic (acting on other proteins) activities. A strong serine protease activity of SE-RFP subunits on Bombyx mori nucleopolyhedrovirus (BmNPV) polyhedral protein was detected by zymography technique. A complete inhibition of BmNPV infection to silkworms was observed by the oral administration assay of the SE-RFP. Here, it is proposed that the SE-RFP prevents the initial infection of BmNPV to silkworms by obliterating the polyhedral protein. This is the first report on a silkworm red fluorescent protein that exhibits a protease activity on exposure to SDS. The present studies would help in understanding the antiviral mechanism of silkworm red fluorescent proteins.
Abstract: The aspiration of this research article is to target and
focus the gains of university-Industry (U-I) collaborations and
exploring those hurdles which are the obstacles for attaining these
gains. University-Industry collaborations have attained great
importance since 1980 in USA due to its application in all fields of
life. U-I collaboration is a bilateral process where academia is a
proactive member to make such alliances. Universities want to
ameliorate their academic-base with the technicalities of technobabbles.
U-I collaboration is becoming an essential lane for achieving
innovative goals in this century. Many developed nations have set
successful examples to prove this phenomenon as a catalyst to reduce
costs, efforts and personnel for R&D projects. This study is exploits
amplitudes of UI collaboration incentives in the light of success
stories of developed countries. Many universities in USA, UK,
Canada and various European Countries have been engaged with
enterprises for numerous collaborative agreements. A long list of
strategic and short term R&D projects has been executed in
developed countries to accomplish their intended purposes. Due to
the lack of intentions, genuine research and research-oriented
environment, the mentioned field could not grow very well in
developing countries. During last decade, a new wave of research
has induced the institutes of developing countries to promote R&D
culture especially in Pakistan. Higher Education Commission (HEC)
has initiated many projects and funding supports for universities
which have collaborative intentions with industry.
Findings show that rapid innovation, overwhelm the technological
complexities and articulated intellectual-base are major incentives
which steer both partners to establish faculty-industry alliances. Everchanging
technologies, concerned about intellectual property,
different research environment and culture, research relevancy (Basic
or applied), exposure differences and diversity of knowledge
(bookish or practical) are main barriers to establish and retain joint
ventures. Findings also concluded that, it is dire need to support and
enhance cooperation among academia and industry to promote highly
coordinated research behaviors. Author has proposed a roadmap for
developing countries to promote R&D clusters among faculty and
industry to deal the technological challenges and innovation
complexities. Based on our research findings, Model for R&D
Collaboration for developing countries also have been proposed to
promote articulated R&D environment. If developing countries
follow this phenomenon, rapid innovations can be achieved with
limited R&D budget heads.
Abstract: Automatic reusability appraisal could be helpful in
evaluating the quality of developed or developing reusable software
components and in identification of reusable components from
existing legacy systems; that can save cost of developing the software
from scratch. But the issue of how to identify reusable components
from existing systems has remained relatively unexplored. In this
paper, we have mentioned two-tier approach by studying the
structural attributes as well as usability or relevancy of the
component to a particular domain. Latent semantic analysis is used
for the feature vector representation of various software domains. It
exploits the fact that FeatureVector codes can be seen as documents
containing terms -the idenifiers present in the components- and so
text modeling methods that capture co-occurrence information in
low-dimensional spaces can be used. Further, we devised Neuro-
Fuzzy hybrid Inference System, which takes structural metric values
as input and calculates the reusability of the software component.
Decision tree algorithm is used to decide initial set of fuzzy rules for
the Neuro-fuzzy system. The results obtained are convincing enough
to propose the system for economical identification and retrieval of
reusable software components.
Abstract: Electricity market activities and a growing demand for electricity have led to heavily stressed power systems. This requires operation of the networks closer to their stability limits. Power system operation is affected by stability related problems, leading to unpredictable system behavior. Voltage stability refers to the ability of a power system to sustain appropriate voltage levels through large and small disturbances. Steady-state voltage stability is concerned with limits on the existence of steady-state operating points for the network. FACTS devices can be utilized to increase the transmission capacity, the stability margin and dynamic behavior or serve to ensure improved power quality. Their main capabilities are reactive power compensation, voltage control and power flow control. Among the FACTS controllers, Static Var Compensator (SVC) provides fast acting dynamic reactive compensation for voltage support during contingency events. In this paper, voltage stability assessment with appropriate representations of tap-changer transformers and SVC is investigated. Integrating both of these devices is the main topic of this paper. Effect of the presence of tap-changing transformers on static VAR compensator controller parameters and ratings necessary to stabilize load voltages at certain values are highlighted. The interrelation between transformer off nominal tap ratios and the SVC controller gains and droop slopes and the SVC rating are found. P-V curves are constructed to calculate loadability margins.
Abstract: Mendelian Disease Genes represent a collection of single points of failure for the various systems they constitute. Such genes have been shown, on average, to encode longer proteins than 'non-disease' proteins. Existing models suggest that this results from the increased likeli-hood of longer genes undergoing mutations. Here, we show that in saturated mutagenesis experiments performed on model organisms, where the likelihood of each gene mutating is one, a similar relationship between length and the probability of a gene being lethal was observed. We thus suggest an extended model demonstrating that the likelihood of a mutated gene to produce a severe phenotype is length-dependent. Using the occurrence of conserved domains, we bring evidence that this dependency results from a correlation between protein length and the number of functions it performs. We propose that protein length thus serves as a proxy for protein cardinality in different networks required for the organism's survival and well-being. We use this example to argue that the collection of Mendelian Disease Genes can, and should, be used to study the rules governing systems vulnerability in living organisms.
Abstract: Procurement is an important component in the field of
operating resource management and e-procurement is the golden key
to optimizing the supply chains system. Global firms are optimistic
on the level of savings that can be achieved through full
implementation of e-procurement strategies. E-procurement is an
Internet-based business process for obtaining materials and services
and managing their inflow into the organization. In this paper, the
subjects of supply chains and e-procurement and its benefits to
organizations have been studied. Also, e-procurement in construction
and its drivers and barriers have been discussed and a framework of
supplier selection in an e-procurement environment has been
demonstrated. This paper also has addressed critical success factors
in adopting e-procurement in supply chains.
Abstract: In this article, using finite element analysis (FEA)
and an X-ray diffractometer (XRD), cold-sprayed titanium particles
on a steel substrate is investigated in term of cooling time and the
development of residual strains. Three cooling-down models of
sprayed particles after deposition stage are simulated and discussed:
the first model (m1) considers conduction effect to the substrate only,
the second model (m2) considers both conduction as well as
convection effect to the environment, and the third model (m3) which
is the same as the second model but with the substrate heated to a
near particle temperature before spraying. Thereafter, residual strains
developed in the third model is compared with the experimental
measurement of residual strains, which involved a Bruker D8
Advance Diffractometer using CuKa radiation (40kV, 40mA)
monochromatised with a graphite sample monochromator. For
deposition conditions of this study, a good correlation was found to
exist between the FEA results and XRD measurements of residual
strains.